{ "type": "genome", "identifier": "GCF_008642235.1", "organism": "Planctomonas psychrotolerans", "title": "Planctomonas psychrotolerans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hebei North University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008642235.1", "bioproject": "PRJNA224116", "biosample": "SAMN10986457", "wgs_master": "SJEV00000000.1", "refseq_category": "reference genome", "taxid": "2528712", "species_taxid": "2528712", "organism_name": "Planctomonas psychrotolerans", "infraspecific_name": "strain=J5903", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/09/23", "asm_name": "ASM864223v1", "asm_submitter": "Hebei North University", "gbrs_paired_asm": "GCA_008642235.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/642/235/GCF_008642235.1_ASM864223v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3290868", "genome_size_ungapped": "3290858", "gc_percent": "69.000000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008642235.1-RS_2024_11_26", "annotation_date": "2024-11-26", "total_gene_count": "3051", "protein_coding_gene_count": "2985", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-09-23", "dateModified": "2019-09-23", "datePublished": "2019-09-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Planctomonas psychrotolerans" ], "sample_taxid": [ "2528712" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Zhangjiakou, Jiuliancheng Nur" ], "sample_host_location_id": [], "data_size": "0.887 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3290868", "Number of Sequences": "2", "Longest Sequences (bp)": "2875940", "N50 (bp)": "2875940", "Gap Ratio (%)": "0.000304", "GCcontent (%)": "69.1", "Number of CDSs": "3037", "Average Protein Length": "327.3", "Coding Ratio (%)": "90.6", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clavibacter californiensis", "strain": "strain=CFBP 8216", "accession": "GCA_003576155.1", "taxid": 1401995, "species_taxid": 1401995, "relation_to_type": "type", "validated": true, "ani": 80.0942, "matched_fragments": 346, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter phaseoli", "strain": "strain=LPPA 982", "accession": "GCA_021922925.1", "taxid": 1734031, "species_taxid": 1734031, "relation_to_type": "type", "validated": true, "ani": 79.8646, "matched_fragments": 432, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter zhangzhiyongii", "strain": "strain=DM1", "accession": "GCA_014775655.1", "taxid": 2768071, "species_taxid": 2768071, "relation_to_type": "type", "validated": true, "ani": 79.8328, "matched_fragments": 447, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter californiensis", "strain": "strain=CFBP 8216", "accession": "GCA_021952865.1", "taxid": 1401995, "species_taxid": 1401995, "relation_to_type": "type", "validated": true, "ani": 79.7366, "matched_fragments": 433, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis", "strain": "strain=VKM Ac-1403", "accession": "GCA_900168345.1", "taxid": 28447, "species_taxid": 28447, "relation_to_type": "suspected-type", "validated": true, "ani": 79.7282, "matched_fragments": 426, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis", "strain": "strain=LMG7333", "accession": "GCA_021216655.1", "taxid": 28447, "species_taxid": 28447, "relation_to_type": "suspected-type", "validated": true, "ani": 79.6917, "matched_fragments": 436, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis subsp. tessellarius", "strain": "strain=ATCC 33566", "accession": "GCA_021922985.1", "taxid": 31965, "species_taxid": 28447, "relation_to_type": "type", "validated": true, "ani": 79.6822, "matched_fragments": 458, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis subsp. insidiosus", "strain": "strain=LMG 3663", "accession": "GCA_002240565.1", "taxid": 33014, "species_taxid": 28447, "relation_to_type": "type", "validated": true, "ani": 79.6778, "matched_fragments": 430, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis subsp. insidiosus", "strain": "strain=ATCC 10253", "accession": "GCA_003076355.1", "taxid": 33014, "species_taxid": 28447, "relation_to_type": "type", "validated": true, "ani": 79.6757, "matched_fragments": 448, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis subsp. michiganensis", "strain": "strain=LMG 7333", "accession": "GCA_002240575.1", "taxid": 33013, "species_taxid": 28447, "relation_to_type": "type", "validated": true, "ani": 79.6644, "matched_fragments": 437, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis subsp. tessellarius", "strain": "strain=ATCC 33566", "accession": "GCA_002240635.1", "taxid": 31965, "species_taxid": 28447, "relation_to_type": "type", "validated": true, "ani": 79.6477, "matched_fragments": 462, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clavibacter michiganensis subsp. insidiosus", "strain": "strain=CFBP 2404", "accession": "GCA_003693415.1", "taxid": 33014, "species_taxid": 28447, "relation_to_type": "type", "validated": true, "ani": 79.6408, "matched_fragments": 428, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbiconiux flava", "strain": "strain=DSM 26474", "accession": "GCA_013409865.1", "taxid": 881268, "species_taxid": 881268, "relation_to_type": "type", "validated": true, "ani": 79.1974, "matched_fragments": 399, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbiconiux solani", "strain": "strain=NBRC 106740", "accession": "GCA_001571005.1", "taxid": 661329, "species_taxid": 661329, "relation_to_type": "type", "validated": true, "ani": 79.0385, "matched_fragments": 386, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Herbiconiux moechotypicola", "strain": "strain=KCTC 19653", "accession": "GCA_024979255.1", "taxid": 637393, "species_taxid": 637393, "relation_to_type": "type", "validated": true, "ani": 78.967, "matched_fragments": 380, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rathayibacter festucae", "strain": "strain=DSM 15932", "accession": "GCA_004011135.1", "taxid": 110937, "species_taxid": 110937, "relation_to_type": "type", "validated": true, "ani": 78.891, "matched_fragments": 424, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces mariniharenae", "strain": "strain=NEAU-184", "accession": "GCA_008122505.1", "taxid": 2604423, "species_taxid": 2604423, "relation_to_type": "type", "validated": true, "ani": 78.8375, "matched_fragments": 409, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cnuibacter physcomitrellae", "strain": "strain=XA(T)", "accession": "GCA_002096055.1", "taxid": 1619308, "species_taxid": 1619308, "relation_to_type": "type", "validated": true, "ani": 78.7856, "matched_fragments": 352, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacisediminihabitans profunda", "strain": "strain=CHu50b-6-2", "accession": "GCA_008040105.1", "taxid": 2594790, "species_taxid": 2594790, "relation_to_type": "type", "validated": true, "ani": 78.7685, "matched_fragments": 363, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces aurantiacus", "strain": "strain=DSM 14598", "accession": "GCA_016907355.1", "taxid": 165814, "species_taxid": 165814, "relation_to_type": "type", "validated": true, "ani": 78.7009, "matched_fragments": 389, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cnuibacter physcomitrellae", "strain": "strain=CGMCC 1.15041", "accession": "GCA_014640535.1", "taxid": 1619308, "species_taxid": 1619308, "relation_to_type": "type", "validated": true, "ani": 78.6993, "matched_fragments": 362, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces ramosus", "strain": "strain=DSM 43045", "accession": "GCA_004216665.1", "taxid": 33879, "species_taxid": 33879, "relation_to_type": "type", "validated": true, "ani": 78.6319, "matched_fragments": 385, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces marinus", "strain": "strain=DSM 26151", "accession": "GCA_021442325.1", "taxid": 1389020, "species_taxid": 1389020, "relation_to_type": "type", "validated": true, "ani": 78.55, "matched_fragments": 355, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cryobacterium breve", "strain": "strain=TMT4-23", "accession": "GCA_004402375.1", "taxid": 1259258, "species_taxid": 1259258, "relation_to_type": "type", "validated": true, "ani": 78.2181, "matched_fragments": 298, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_008642235.1", "gtdb_species": "s__Planctomonas sp008642235", "ani": 100.0, "matched_fragments": 1096, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Planctomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_003067705.1", "gtdb_species": "s__Planctomonas deserti", "ani": 81.1316, "matched_fragments": 615, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Planctomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001280205.1", "gtdb_species": "s__Clavibacter capsici", "ani": 79.9789, "matched_fragments": 442, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "95.31", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.91", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_002151125.1", "gtdb_species": "s__Clavibacter michiganensis_C", "ani": 79.8616, "matched_fragments": 442, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_014775655.1", "gtdb_species": "s__Clavibacter zhangzhiyongii", "ani": 79.8093, "matched_fragments": 449, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.40", "min_intra_species_ani": "98.40", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016907085.1", "gtdb_species": "s__Clavibacter michiganensis_O", "ani": 79.7989, "matched_fragments": 436, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_900168345.1", "gtdb_species": "s__Clavibacter michiganensis", "ani": 79.728, "matched_fragments": 426, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "95.09", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.88", "num_clustered_genomes": 49, "status": "-" }, { "accession": "GCF_015351075.1", "gtdb_species": "s__Clavibacter sp015351075", "ani": 79.669, "matched_fragments": 425, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_002240635.1", "gtdb_species": "s__Clavibacter tessellarius", "ani": 79.6471, "matched_fragments": 462, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.95", "min_intra_species_ani": "95.37", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003384945.1", "gtdb_species": "s__Clavibacter sp003384945", "ani": 79.6048, "matched_fragments": 466, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_002150995.1", "gtdb_species": "s__Clavibacter michiganensis_K", "ani": 79.424, "matched_fragments": 455, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Clavibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "98.42", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001422325.1", "gtdb_species": "s__Leifsonia_A sp001422325", "ani": 78.9952, "matched_fragments": 360, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Leifsonia_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.12", "min_intra_species_ani": "96.12", "mean_intra_species_af": "0.77", "min_intra_species_af": "0.77", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002797855.1", "gtdb_species": "s__Compostimonas suwonensis", "ani": 78.94, "matched_fragments": 396, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Compostimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_008122505.1", "gtdb_species": "s__Agromyces sp008122505", "ani": 78.8579, "matched_fragments": 407, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Agromyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_014640535.1", "gtdb_species": "s__Cnuibacter physcomitrellae", "ani": 78.6881, "matched_fragments": 363, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cnuibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.64", "min_intra_species_ani": "97.29", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003751785.1", "gtdb_species": "s__Frigoribacterium sp003751785", "ani": 78.6757, "matched_fragments": 408, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Frigoribacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_004216665.1", "gtdb_species": "s__Agromyces ramosus", "ani": 78.6429, "matched_fragments": 384, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Agromyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_004959775.1", "gtdb_species": "s__Agromyces sp004959775", "ani": 78.5991, "matched_fragments": 392, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Agromyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_004402485.1", "gtdb_species": "s__Cryobacterium sp004402485", "ani": 78.5744, "matched_fragments": 338, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_002404115.1", "gtdb_species": "s__Cryobacterium sp002404115", "ani": 78.3509, "matched_fragments": 218, "total_fragments": 1096, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Cryobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Planctomonas", "psychrotolerans" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }